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Table 1 Number of drugs in CMAP dataset which yielded gene differential expression results by each method

From: Influence of batch effect correction methods on drug induced differential gene expression profiles

Method

Number of results

limma+ Null

1288 (98.4%)

limma+1PC

1288 (98.4%)

limma+2PCs

1271 (97.1%)

limma+3PCs

1270 (97.0%)

limma+4PCs

1236 (94.4%)

limma + Batch id

1288 (98.4%)

LEAPP

1254 (95.8%)

  1. Note: percentage out of 1309 drugs in parentheses